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Next Generation Sequencing Technologies And Challenges In Sequence Assembly

Author: Sara El-Metwally, M.Sc
Publisher: Springer Science & Business
ISBN: 1493907158
Size: 79.79 MB
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The introduction of Next Generation Sequencing (NGS) technologies resulted in a major transformation in the way scientists extract genetic information from biological systems, revealing limitless insight about the genome, transcriptome and epigenome of any species. However, with NGS, came its own challenges that require continuous development in the sequencing technologies and bioinformatics analysis of the resultant raw data and assembly of the full length genome and transcriptome. Such developments lead to outstanding improvements of the performance and coverage of sequencing and improved quality for the assembled sequences, nevertheless, challenges such as sequencing errors, expensive processing and memory usage for assembly and sequencer specific errors remains major challenges in the field. This book aims to provide brief overviews the NGS field with special focus on the challenges facing the NGS field, including information on different experimental platforms, assembly algorithms and software tools, assembly error correction approaches and the correlated challenges.

Next Generation Sequencing And Sequence Assembly

Author: Ali Masoudi-Nejad
Publisher: Springer Science & Business Media
ISBN: 1461477263
Size: 14.46 MB
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The goal of this book is to introduce the biological and technical aspects of next generation sequencing methods, as well as algorithms to assemble these sequences into whole genomes. The book is organized into two parts; part 1 introduces NGS methods and part 2 reviews assembly algorithms and gives a good insight to these methods for readers new to the field. Gathering information, about sequencing and assembly methods together, helps both biologists and computer scientists to get a clear idea about the field. Chapters will include information about new sequencing technologies such as ChIp-seq, ChIp-chip, and De Novo sequence assembly. ​

Next Generation Sequencing And Sequence Assembly

Author: Ali Masoudi-Nejad
Publisher: Springer Science & Business Media
ISBN: 1461477263
Size: 42.74 MB
Format: PDF, ePub, Docs
View: 224
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The goal of this book is to introduce the biological and technical aspects of next generation sequencing methods, as well as algorithms to assemble these sequences into whole genomes. The book is organized into two parts; part 1 introduces NGS methods and part 2 reviews assembly algorithms and gives a good insight to these methods for readers new to the field. Gathering information, about sequencing and assembly methods together, helps both biologists and computer scientists to get a clear idea about the field. Chapters will include information about new sequencing technologies such as ChIp-seq, ChIp-chip, and De Novo sequence assembly. ​

Big Data And Differential Privacy

Author: Nii O. Attoh-Okine
Publisher: John Wiley & Sons
ISBN: 1119229049
Size: 30.25 MB
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A comprehensive introduction to the theory and practice of contemporary data science analysis for railway track engineering Featuring a practical introduction to state-of-the-art data analysis for railway track engineering, Big Data and Differential Privacy: Analysis Strategies for Railway Track Engineering addresses common issues with the implementation of big data applications while exploring the limitations, advantages, and disadvantages of more conventional methods. In addition, the book provides a unifying approach to analyzing large volumes of data in railway track engineering using an array of proven methods and software technologies. Dr. Attoh-Okine considers some of today’s most notable applications and implementations and highlights when a particular method or algorithm is most appropriate. Throughout, the book presents numerous real-world examples to illustrate the latest railway engineering big data applications of predictive analytics, such as the Union Pacific Railroad’s use of big data to reduce train derailments, increase the velocity of shipments, and reduce emissions. In addition to providing an overview of the latest software tools used to analyze the large amount of data obtained by railways, Big Data and Differential Privacy: Analysis Strategies for Railway Track Engineering: • Features a unified framework for handling large volumes of data in railway track engineering using predictive analytics, machine learning, and data mining • Explores issues of big data and differential privacy and discusses the various advantages and disadvantages of more conventional data analysis techniques • Implements big data applications while addressing common issues in railway track maintenance • Explores the advantages and pitfalls of data analysis software such as R and Spark, as well as the Apache™ Hadoop® data collection database and its popular implementation MapReduce Big Data and Differential Privacy is a valuable resource for researchers and professionals in transportation science, railway track engineering, design engineering, operations research, and railway planning and management. The book is also appropriate for graduate courses on data analysis and data mining, transportation science, operations research, and infrastructure management. NII ATTOH-OKINE, PhD, PE is Professor in the Department of Civil and Environmental Engineering at the University of Delaware. The author of over 70 journal articles, his main areas of research include big data and data science; computational intelligence; graphical models and belief functions; civil infrastructure systems; image and signal processing; resilience engineering; and railway track analysis. Dr. Attoh-Okine has edited five books in the areas of computational intelligence, infrastructure systems and has served as an Associate Editor of various ASCE and IEEE journals.

Next Generation Sequencing Technologies In Medical Genetics

Author: C. Alexander Valencia
Publisher: Springer Science & Business Media
ISBN: 1461490324
Size: 51.84 MB
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This book introduces readers to Next Generation Sequencing applications in medical genetics. The authors discuss the direct application of next-generation sequencing to medicine, specifically, laboratory medicine or molecular diagnostics. The first part of the book contains chapters on sanger sequencing, NGS technologies, targeted-amplification and capture, and exome sequencing. The second part of the book focuses on genetic disorders diagnoses by NGS, prenatal diagnosis, muscular dystrophies, mitochondrial disorders diagnosis, and challenges in molecular diagnosis. Recent developments and potential future trends in NGS sequencing applications are highlighted, as well.​

Community Oriented Policing And Technological Innovations

Author: Georgios Leventakis
Publisher: Springer
ISBN: 3319892940
Size: 44.89 MB
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This Brief presents new approaches and innovative challenges to address bringing technology into community-oriented policing efforts. “Community-oriented policing” is an approach that encourages police to develop and maintain personal relationships with citizens and community organizations. By developing these partnerships, the goal is to enhance trust and legitimacy of police by the community (and vice versa), and focus on engaging the community crime prevention and detection efforts for sustainable, long-term crime reduction. The contributions to this volume emphasize how technological innovations can advance community-oriented policing goals, such as: -Strengthening community policing principles through effective and efficient tools, procedures and approaches - Accelerating communication between citizens and police forces - Early identification, timely intervention, as well as better crime reporting, identification of risks, unreported and undiscovered crime through the community Contributions to this volume were developed out of the Next Generation Community Policing (NGCP) International Conference was co-organized by nine contributing research and development projects, funded by the Horizon 2020 SECURITY Program of the European Commission. It will be of interest to researchers in criminology and criminal justice, as well as related fields such as sociology, public health, security, IT and public policy. This book is open access under a CC BY license.

Renewable Synthetic Fuels And Chemicals From Carbon Dioxide

Author: David S.A. Simakov
Publisher: Springer
ISBN: 3319611127
Size: 33.33 MB
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This book outlines the most recent progress in the development of technologies for carbon dioxide utilization into renewable synthetic fuels and platform chemicals via chemical and biological routes. Various processes are discussed, including thermocatalytic, electrocatalytic, photocatalytic, and biological conversion. This SpringerBrief consists of four chapters, each chapter outlining fundamentals and catalytic mechanisms, and discussing main design considerations and major technological challenges, providing also a brief outline of the most recent progress. The book is useful for a broad community of academic and industrial researchers in the fields of chemical reaction engineering, electro- and photo-chemistry, and biochemical engineering, with specific emphasizes on heterogeneous catalysis, reactor design and process development.

How To Reliably Test For Gmos

Author: Jana Žel
Publisher: Springer Science & Business Media
ISBN: 9781461413905
Size: 77.19 MB
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The detection of genetically modified organisms (GMOs) is becoming very complex, with new GMOs, approved and unapproved, constantly entering world markets. Traceability and labelling of GMOs is defined in regulations worldwide, demanding accurate and reliable testing to support the requirements of legislation. This Brief provides the current state-of-the-art on all key topics involved in GMO testing and is a source of detailed practical information for laboratories. Special focus is given to qualitative and quantitative real-time PCR analysis relevant to all areas where detection and identification rely on nucleic acid-based methods. The following topics, important for testing laboratories, are also discussed: organization of the laboratory, focusing on aspects of the quality system and methods for testing, validation and verification of methods, and measurement uncertainty. The Brief also discusses the new challenges of GMOs and novel modified organisms, using new technologies, and the possible solutions for GMO detection, including bioinformatics tools. Finally, legislation on GMOs and sources of information on GMOs are provided, which are relevant not only to testing laboratories, but to anyone interested in GMOs. The authors of this Brief have many years of experience in GMO testing, development of real-time PCR methods, implementation of quality system requirements, validations and verification of methods, and measurement uncertainty. The National Institute of Biology is a highly qualified research laboratory and a National Reference Laboratory, which also performs routine analyses of food, feed and seed. The Institute for Health and Consumer Protection of the European Union Joint Research Centre has extensive knowledge and experience of GMO detection. It hosts the European Union Reference Laboratory for GM Food and Feed in addition to chairing the European Network of GMO Laboratories.

Ethics Dumping

Author: Doris Schroeder
Publisher: Springer
ISBN: 3319647318
Size: 33.46 MB
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This book is published under a CC BY 4.0 license. This book provides original, up-to-date case studies of “ethics dumping” that were largely facilitated by loopholes in the ethics governance of low and middle-income countries. It is instructive even to experienced researchers since it provides a voice to vulnerable populations from the fore mentioned countries. Ensuring the ethical conduct of North-South collaborations in research is a process fraught with difficulties. The background conditions under which such collaborations take place include extreme differentials in available income and power, as well as a past history of colonialism, while differences in culture can add a new layer of complications. In this context, up-to-date case studies of unethical conduct are essential for research ethics training.

Biodiversity In Aquatic Systems And Environments

Author: Noboru Okuda
Publisher: Springer Science & Business Media
ISBN: 4431541500
Size: 31.60 MB
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This book presents the latest topics in ecological and evolutionary research on aquatic biodiversity from bacteria to fishes, with special reference to Lake Biwa, an ancient lake in western Japan. With a geological history of 4 million years, Lake Biwa is the third oldest lake in the world. It is considered a biodiversity hotspot, where 1,769 aquatic species including 61 endemics are recorded, providing a rare opportunity to study the evolutionary diversification of aquatic biota and its ecological consequences. The first chapter introduces the evolutionary history of biodiversity, especially of fish in this lake. In the second chapter, some examples of trophic polymorphism in fish are described. Fish are keystone predators in lake ecosystems, and they can be a major driver for altering biological communities through their top-down trophic cascading effects. An excellent laboratory experiment is presented, demonstrating that functional diversity of fish feeding morphology alters food web properties of plankton prey communities. The third chapter focuses on aquatic microbes, whose abundance and diversity may also be influenced by the diversity of fish through top-down trophic cascades. Aquatic microbes can have a strong impact on ecosystem functioning in lakes, and in this chapter, the latest molecular techniques used to examine genetic and functional diversity of microbial communities are introduced. The final chapter presents theoretical frameworks for predicting how biodiversity has the potential to control the incidence and intensity of human-induced regime shifts. While respecting the precious nature of biodiversity in lakes, it is essential to be aware that modern human activities have brought a crisis of biodiversity loss in lakes worldwide. Throughout this book, readers will learn why biodiversity must be conserved at all levels, from genes to ecosystems.